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Showing top results for tag:
read
•
reset
0
votes
1
reply
131
views
Can a read be aligned more than once?
alignment
gaf
read
sam
updated 11 hours ago by
GenoMax
146k • written 12 hours ago by
guntul
▴ 40
1
vote
3
replies
267
views
Why higher read counts in chromosome M/MT
IGV
MT-DNA
count
mitochondria
read
updated 5 days ago by
ATpoint
85k • written 5 days ago by
Lou11
• 0
0
votes
0
replies
162
views
Issues with T2T in pigeon prepare from isoseq
isoseq
long
rna-seq
read
6 weeks ago by
SethJ
• 0
27
votes
9
replies
39k
views
7 follow
How To Extract Set Of Reads From Fastq (Or Eventually Fasta And Qual) Based On List Of Ids?
extraction
read
454
fastq
fasta
updated 11 weeks ago by
GenoMax
146k • written 12.5 years ago by
Biomonika (Noolean)
3.2k
1
vote
4
replies
987
views
Understanding STAR output (Aligned.out.sam file)
STAR
paired-end
read
5 months ago by
heelpPlease
• 0
2
votes
2
replies
468
views
Is therer any suggestions on mapping rate of WGBS data?
mapping
read
alignment
WGBS
5 months ago by
Zeng Jingyu
▴ 80
4
votes
4
replies
825
views
Bowtie2 mapping is slow
metagenomics
bowtie2
mapping
read
updated 6 months ago by
colindaven
6.8k • written 7 months ago by
Md Moinuddin
• 0
2
votes
3
replies
494
views
Read length distribution of whole genome sequnces of human
fastq
read
fastqc
7 months ago by
Yellapu
• 0
10
votes
5
replies
781
views
Illumina NextSeq 500 Read Length
NGS
read
NextSeq
updated 8 months ago by
jv
★ 1.8k • written 8 months ago by
analyst
▴ 50
3
votes
1
reply
503
views
How to retrieve the number of reads mapped for each chromosome in the BAM file of methylation data
bam
methylation
mapped
read
updated 12 months ago by
GenoMax
146k • written 12 months ago by
sata72
• 0
2
votes
3
replies
787
views
Finding exactly where reads map from SAM
alignment
read
Bowtie
SAM
BWA
updated 12 months ago by
Istvan Albert
101k • written 12 months ago by
Sisyphus
• 0
2
votes
3
replies
1.1k
views
What is the fastest nucleotide sequence alignment search tool for 100mer queries versus a 2G database for nearly similar matches
alignment
read
nucleotide
aligner
sequence
updated 13 months ago by
GenoMax
146k • written 13 months ago by
a615ebfb
▴ 40
0
votes
0
replies
365
views
Count hexamer bias from pair end short read data
short
DESeq2
bias
read
hexamer
updated 17 months ago by
rpolicastro
13k • written 17 months ago by
shinyjj
▴ 50
2
votes
3
replies
727
views
sambamba-depth: All files must be coordinate-sorted error?
read
linux
sambamba
updated 17 months ago by
Pierre Lindenbaum
164k • written 17 months ago by
MobiusT
▴ 20
0
votes
2
replies
1.2k
views
Why the number of reads in bam generated by GATK haplotype caller are more than the bam generated after GATK baserecalibrator
BaseRecalibrator
BAM
GATK
READ
HaplotypeCaller
18 months ago by
pragnapcu
▴ 10
0
votes
0
replies
409
views
Inferring relative gene abundance from short reads
metagenomics
read
16S
short
mapping
18 months ago by
SushiRoll
▴ 130
0
votes
2
replies
800
views
Sorting the Input Bam file by Read Id.
Samblaster
read
InputBAM
id
updated 18 months ago by
rpolicastro
13k • written 18 months ago by
jigarnt
▴ 30
2
votes
3
replies
1.9k
views
Can't add read group correctly to minimap2 sam alignmnet
group
read
GATK
minimap2
updated 20 months ago by
GenoMax
146k • written 20 months ago by
hans
▴ 20
0
votes
1
reply
1.1k
views
short read aligners 25-50bp BWA vs BWA-MEM vs Bowtie vs Bowtie2
alignment
read
short
updated 21 months ago by
colindaven
6.8k • written 21 months ago by
Jalil Sharif
▴ 80
0
votes
0
replies
407
views
question regarding sequencing alignment
alignment
read
sequence
23 months ago by
Lin
▴ 30
1
vote
2
replies
763
views
Reads that don't map back on assembly itself
metagenomics
read
assembly
mapping
updated 23 months ago by
Istvan Albert
101k • written 23 months ago by
Bwremjoe
▴ 30
1
vote
2
replies
1.6k
views
The insert size distribution in RNA-seq fastp output shows 45-50% sequences of unknown length
read
Illumina
RNA-seq
fastp
length
updated 24 months ago by
GenoMax
146k • written 24 months ago by
Atreya
• 0
0
votes
1
reply
565
views
Quantifying GFP and GAL4 reads in drosophila
salmon
qunatification
read
updated 24 months ago by
seidel
11k • written 24 months ago by
nhaus
▴ 430
0
votes
0
replies
427
views
WGS trimming end of the reads for specific bp before alignment and call somatic variants
read
trim
WGS
somatic
variant
2.0 years ago by
woongjaej
▴ 30
2
votes
2
replies
769
views
Why SNPs with read depth > 100 or 200 were removed?
SNPs
read
depth
2.1 years ago by
wangh920
▴ 10
2
votes
3
replies
1.1k
views
Reads mapping to pseudogenes using RSubread
Pseudogenes
Read
RNAseq
Rsubread
Mapping
Alignment
2.1 years ago by
cstashko
• 0
0
votes
4
replies
915
views
High number of unmapped reads in STAR
read
count
alignement
STAR
genecount
2.1 years ago by
Ngrin
• 0
0
votes
3
replies
904
views
Htseq-count output file having a high number of __not_aligned
read
htseq-count
human
counts
genome
alignment
updated 2.1 years ago by
Shred
★ 1.5k • written 2.1 years ago by
Nemo
• 0
0
votes
0
replies
332
views
The region for RNase P gene in human genome
gene
genome
read
count
2.1 years ago by
Nemo
• 0
0
votes
1
reply
556
views
Normalized read counts with FPKM
Read
FPKM
Normalize
count
RNA-Sequnce
2.2 years ago by
Nemo
• 0
0
votes
5
replies
1.0k
views
STAR aligned my .fastq reads to the whole genome as opposed to only to the coding sequences
read
RNA-seq
STAR
Galaxy
alignment
updated 2.2 years ago by
lieven.sterck
15k • written 2.2 years ago by
Aleksandar
• 0
3
votes
3
replies
1.3k
views
Why different read depth on IGV and in VCF for a variant
depth
GATK
read
haplotypecaller
IGV
updated 2.2 years ago by
Friederike
9.0k • written 2.2 years ago by
pragnapcu
▴ 10
3
votes
6
replies
1.5k
views
Expanding reference genome with alt loci and decoy sequences
read
alt
reference
decoy
genome
alignment
2.2 years ago by
appropiate
▴ 80
1
vote
1
reply
459
views
Comparison of two ChIP-seq experiments - impact of read length, PE or SE and coverage
ChIP-seq
read
length
updated 2.3 years ago by
ATpoint
85k • written 2.3 years ago by
alejandrocastillaibeas
▴ 20
28
votes
8
replies
32k
views
6 follow
What Is Ad (Allelic Depth) In 1000Genomes Vcf?
read
allele
genome
updated 2.4 years ago by
Maryam
▴ 10 • written 13.8 years ago by
Chronos
▴ 620
3
votes
5
replies
1.2k
views
Find mean read length of a bam file dataset of reads?
bam
dataset
read
gz
linux
updated 2.3 years ago by
Ram
44k • written 2.4 years ago by
MobiusT
▴ 20
2
votes
3
replies
1.6k
views
bedcov output meaning
coverage
read
bedcov
updated 2.4 years ago by
Pierre Lindenbaum
164k • written 2.4 years ago by
amy__
▴ 190
34
votes
16
replies
22k
views
9 follow
Filtration Of Reads With Length Lower Than 30 From Bam
read
length
bam
updated 6 months ago by
Hagen
▴ 10 • written 10.7 years ago by
filipzembol
▴ 180
4
votes
6
replies
1.8k
views
Forum:
How relevant are read numbers in FastQ headers for paired reads?
header
fastq
number
read
2.5 years ago by
Matthias Zepper
4.9k
0
votes
0
replies
629
views
How much reads count expected in microRNA exosome quantification?
microRNA
count
exosome
read
2.6 years ago by
TuT
• 0
2
votes
1
reply
519
views
Are Read Groups (@RG tags) important when using tools like STAR, Kallisto, and Salmon for alignment?
alignment
rna-seq
rg
group
read
updated 2.6 years ago by
ATpoint
85k • written 2.6 years ago by
'
▴ 330
2
votes
4
replies
739
views
BAM reads much longer than fastq?
ChIPseq
read
length
updated 2.6 years ago by
GenoMax
146k • written 2.6 years ago by
Jay
• 0
0
votes
1
reply
581
views
HT-seq, No feature, Alignment not unique Output
No
feature
HTSeq
read
updated 2.6 years ago by
yhoogstrate
▴ 150 • written 2.6 years ago by
TM
▴ 20
0
votes
3
replies
784
views
Generate with specific converage
simulation
read
updated 2.7 years ago by
GenoMax
146k • written 2.7 years ago by
Tim
• 0
0
votes
0
replies
564
views
How to label columns in HTSeq output
RNAseq
HTSeq
counting
read
updated 2.8 years ago by
cpad0112
21k • written 2.8 years ago by
mrs97
• 0
0
votes
0
replies
445
views
Why RSEM gives low mapping rate when compared with GSNAP for Brassica genomes
mapping
Allopolyploids
Brassica
Read
GSNAP
RSEM
2.8 years ago by
thulani.m.hewavithana
• 0
0
votes
0
replies
467
views
How can I find reads that have multi-mapped with multiple genes overlapping in the same region
Rna-Seq
multi
mapped
read
2.8 years ago by
Berk
• 0
0
votes
3
replies
1.0k
views
Read groups for multi-lane sample
group
read
updated 2.9 years ago by
GenoMax
146k • written 2.9 years ago by
shivangi.agarwal800
▴ 120
0
votes
0
replies
390
views
Read Counts, qualitative or Quantitative?
quantitative
counts
qualitative
PCA
CCA
read
2.9 years ago by
vborincenturion
• 0
0
votes
0
replies
516
views
What is the relationship between the value of the bigwig file generated by MACS2 and the read count?
Bigwig
ChIP-seq
Read
count
2.9 years ago by
2973520704
• 0
50 results • Page
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